Meta-MEME is a software toolkit for building and using motif-based hidden Markov models of DNA and proteins. The input to Meta-MEME is a set of similar protein sequences, as well as a set of motif models discovered by MEME. Meta-MEME combines these models into a single, motif-based hidden Markov model and uses this model to search a sequence database for homologs.

To run this software interactively in a Linux environment run the commands:

module load meme

The following executables are available:

  • 2html
  • draw-mhmm
  • fasta-get-markov
  • mcast
  • mhmm
  • mhmm2html
  • mhmme
  • mhmms
  • mhmmscan
  • transfac2meme

Papers are available at:

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